histoCAT

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Loading in Gates

6

I've been gating my cell populations by exporting my samples from Histocat to csv files and removing cells that are below a certain threshold of protein expression. I was wondering...

apyliu

P values matrix from neighboorhood analysis

1

I was trying to figure out which output from the Matlab file generated from the neighborhood analysis corresponds to the p-values for the interaction clustergram map. Or is there a...

Bunmi0616

Phenograph fails in windows with index out of bounds error in windows

4

Greetings, My phenograph analysis is failing on a Windows server as I try to scale my analysis on AWS EC2 instance. The analysis works on my Mac which has limited...

ramgridhc

Big Sur compatibility

10

The newest version of histoCAT doesn't seem to work with MacOS 11 (Big Sur). Will there be an update?

jobha

Debian Installation Instructions Lacking

3

In Assets, I see histoCAT_1.75_Debian.install but there are no instructions about what to do with that file. I would know what to do if it is a DEB file but...

DarioS

Error during PhenoGraph calculation

6

Hello, I have run into a repeating problem when trying to analyze my IMC data via PhenoGraph, as the necessary step prior to neighbourhood analysis. When running PhenoGraph with e.g....

maxgrigori

Neighbourhood Analysis Not Running

1

Dear Sir, I am trying to run neighbourhood analysis, but it just showed a 'Please wait' box which clashed after a few minutes, without any result showed. I have attached...

JT218

Error using array2table (line 72) Duplicate variable name: 'Amount_cells_in_sample'.

1

After gating on cells, this issue appears. Perhaps, if the same cell is present in 3 different gates, this issue will appear?

CharlesXXYY

Missing channels in Phenograph cluster

2

Hi, I'm experiencing the issue, that if all cells in one sample have the value = 0 for a channel, this channel cannot be selected for e.g. Phenograph. Is there...

laufre

Loading in FCS Files

3

Is there a way to load in custom gates in a new session?

hissingpanda